prc:Gene: Difference between revisions

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Revision as of 21:33, 26 July 2010

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Resources Accessions Links References Suggestions

Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

prc

Mnemonic

PBP protease, C terminal

Synonyms

ECK1829, b1830, JW1819, tsp[1]

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Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

41.18 minutes 

MG1655: 1912840..1910792
<gbrowseImage> name=NC_000913:1910792..1912840 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1893393..1891345
<gbrowseImage> name=NC_012967:1891345..1893393 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1802851..1804899
<gbrowseImage> name=NC_012759:1802851..1804899 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1916530..1914482
<gbrowseImage> name=AC_000091:1914482..1916530 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2003411..2001363
<gbrowseImage> name=NC_010473:2001363..2003411 source=ecoli_DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

1910795

Edman degradation

PMID:1729701[2]


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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

Δprc (Keio:JW1819)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC9520[4]

prc

PMID:12519969[5]

ASAP

At position 405 in Plus orientation, contains plasmid pKD46.
ASAP strain name: FB20464

prcK477R

K477R

Loss of activity. Perturbs protein structure

seeded from UniProt:P23865

prcK477A,H

K477A,H

Loss of activity. No apparent effect on protein structure

seeded from UniProt:P23865

prcG397A

G397A

Loss of activity. Perturbs protein structure

seeded from UniProt:P23865

prcG398A

G398A

Loss of activity. Perturbs protein structure

seeded from UniProt:P23865

prcS452A

S452A

Loss of activity

seeded from UniProt:P23865

prcS452C

S452C

Reduces activity by over 90%

seeded from UniProt:P23865

prcE455A

E455A

Loss of activity. Perturbs protein structure

seeded from UniProt:P23865

prcD463A

D463A

Loss of activity

seeded from UniProt:P23865

prcD463N

D463N

Reduces activity by 90%

seeded from UniProt:P23865

prcT474A

T474A

Loss of activity. Perturbs protein structure

seeded from UniProt:P23865

Δprc-755::kan

PMID:16738554[3]

CGSC:102450


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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW1819

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCAACATGTTTTTTAGGCTTAC

Primer 2:CCtTTGACGGGAGCGGGTTGTTC

zea-225::Tn10

Linked marker

CAG18465 = CGSC7388[4]

est. P1 cotransduction: 17% [7]
Synonyms:zdj-225::Tn10

eda-51::Tn10

Linked marker

CAG18486 = CGSC7392[4]

est. P1 cotransduction: 50% [7]

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10760

EchoBASE (EcoliWiki Page)

EchoBASE:EB0753

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1830

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C2239

EcoGene (EcoliWiki Page)

EcoGene:EG10760

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:PRC

CGSC (EcoliWiki Page)

CGSC:32334

ASAP (EcoliWikiPage)

ASAP:ABE-0006090


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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ Silber, KR et al. (1992) Tsp: a tail-specific protease that selectively degrades proteins with nonpolar C termini. Proc. Natl. Acad. Sci. U.S.A. 89 295-9 PubMed
  3. ↑ 3.0 3.1 Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed
  4. ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  5. ↑ Glasner, JD et al. (2003) ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res. 31 147-51 PubMed
  6. ↑ Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed
  7. ↑ 7.0 7.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

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